Plant Circular RNA Database

Detail information of Os03g0659900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0659900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_020881
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 25853277-25855522  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0659900						
					
						Parent gene annotation
						
							Similar to S3 self-incompatibility locus-linked pollen 3.15 prot
ein. (Os03t0659900-01);Similar to S2 self-incompatibility locus-
linked pollen 3.15 protein (Fragment). (Os03t0659900-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0659900_circ_g.3 Os03g0659900_circ_g.4 Os03g0659900_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os03t0659900-02:5
Os03t0659900-01:5

General Information
CircRNA Name	Os03g0659900_circ_g.2
ID in PlantcircBase	osa_circ_020881
Alias	NA
Organism	Oryza sativa
Position	chr3: 25853277-25855522 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0659900
Parent gene annotation	Similar to S3 self-incompatibility locus-linked pollen 3.15 prot ein. (Os03t0659900-01);Similar to S2 self-incompatibility locus- linked pollen 3.15 protein (Fragment). (Os03t0659900-02)
Parent gene strand	-
Alternative splicing	Os03g0659900_circ_g.3 Os03g0659900_circ_g.4 Os03g0659900_circ_g.5
Support reads	1
Tissues	root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os03t0659900-02:5 Os03t0659900-01:5

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							TACTGCCAGACAACATACCTATTGTTGAAACAAGATGATCCACGCTTGGTAATTGAATACCCTT
GATGGTATGGAGGAAGTCATTCCAGTTTGATCTGAActccaaatcttgttggacctgctggtgg
ttcatgtccgtaactgagatcataaagctcctttgtttgaaagttgtataaatagcctgcatat
caaaccaa

									
								

					

						Assembled circRNA sequence  
						
							Yes
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							Transcript length: 403
Transcript exons: 25853277-25853360,25853472-25853551,25854958-25855052,25
855247-25855308,25855441-25855522
CTCCAAATCTTGTTGGACCTGCTGGTGGTTCATGTCCGTAACTGAGATCATAAAGCTCCTTTGT
TTGAAAGTTGTATAAATAGCCATGACCAGGGGAGTTCACTAAGCTGTTTGTAAGTATAGTGTCA
TAGCCAACAATGCTGTTTATTAAAAGCTGTTGCCACCTATTTCCAAAGCAAGGATTTCGAGCAG
AAATTGTGATATTTATAGTCCGAACACCATGACGAACTTTGGCCCCTTCTGAAAGCAAGAAATA
TCCCTTCTCCACACCATATAAATAGGTAGGTTCAAATGCTTTGCTTCGTCTCTCAAACCACTGT
ACTATTGTTGAAACAAGATGATCCACGCTTGGTAATTGAATACCCTTGATGGTATGGAGGAAGT
CATTCCAGTTTGATCTGAA
						
					

						Genomic sequence
						
							CTCCAAATCTTGTTGGACCTGCTGGTGGTTCATGTCCGTAACTGAGATCATAAAGCTCCTTTGT
TTGAAAGTTGTATAAATAGCCTGCATATCAAACCAAAGTACAAAATATGTGAGCTAACTAAGTT
TGCGACAGTTGCATAGAACATCCTGATAGTTAAAAGTACCAAAAGCAAAATCACATCAGAAGCA
TACCATGACCAGGGGAGTTCACTAAGCTGTTTGTAAGTATAGTGTCATAGCCAACAATGCTGTT
TATTAAAAGCTGTTGCCACCTGAAAGGTTAAAAAAGAGAGATTGGATAGCATAAGAACATAGCG
GTGGGCATGAAAGAACAGTGGAGCATTATCACATTCTGCAGATACCCACTACAGAAGCAAAATG
AAAGAAGACAGAACGAATGCAAAATCTTGTTTAAGTTCTCAATATAAATGACAGATTTTTAAGT
AGCAATTAGATATTCCATATTTGTAACGCTAGAATTTTTATGCAGCTCTTTGAAACTCAGTAAA
TGTTCCAACTATTTGGGTACAAGAGCAATATAAAACAAAGATCAATAAACAAAATGAGAAAATT
CCTTGCATGCCATCCAAAGTCCTTACACGCCATCCAAAGTTTATGAGTTTGTTTCCTAATATGC
CATGTCGAAATTATTGTTCCATTCACCAATGCCTAAACTTCTCTTGCCTTTTTTTTTTTTGCCA
TTCTCATCATCCTAATGTTAGCAAACTGTTACATGGGCGGTAAGATGACCATTGGGCCCTCCAT
ATCTTCTTCAACTTGTCTCCTTCCTCTTCCATTCTTTCACGCCACTTCACTGCGCCTACCTCCC
ATGCAACTGCTCCCCCGGTTGCACATGCTTTCTCGATCTCATTGCCCCACAGCACACAACCAGG
CATGGAAGGCGAGGACAGCACCACCATACCATCTGTCATGGCATCACAGCAGATGCAAGCATGT
GTGGTATGCAGCAATCTGAATCCATTTTTTTTCTTCATGGGCACGGAAATGAACCCCAGTCTGC
AGCAGGCGTACATACGGTGCCCGTGCTCCTCCTGGCAACCCCCCTCCCCCCCCCCCAACAAACT
CTCTCTCTCTCTCTCCTCTCTTTAGACATAACAAAACAAAGCAAGCACTGGTATCTAGCCATAC
CACACATAGAATGGCCTTGCTAAGCTGCCAGTTCAACAGAGGTGGGAAGTGAGCTGCCAATCCA
CCATGCGGTTCACGCCATCATAACCTAGCCTCACTAGGTGAAGGGAGCAGTGATGTTGAGGCCC
CAGCTTTCGCATCCAATTTGGGAGGAACTCTCTGAATCTATGCGCAAAGAGTAATTTCACCATT
ATCACAAGAAAATGATAATGTTCCTAGCTGTGATTGTTGCTAGCTAACGGAAGAGCGACGTGGA
TGGCAAAAGAGGGCAAAAAAATTTGGTTCGATGGCATATGGTGGAATGACAGCTTCCAATGCAT
TTAAAGGAACTCATGAACTTTGAATGGCATCAAACAAGTAGACTTGCCAGAGCAATGAATTACA
CAAACATGAACTTTTGGGCAGAATCAGGACATAAAAGTTAGAATCTAATCTAAGTAGCATGAAG
TAGAAAGATGTCAAGTGGAAACTTTTGGAGACACATCTAGTGTGATATGCCCATTATGAGGAGC
AAGTACTCGATAATGACCTATTTCCAAAGCAAGGATTTCGAGCAGAAATTGTGATATTTATAGT
CCGAACACCATGACGAACTTTGGCCCCTTCTGAAAGCAAGAAATATCCCTGCAGGAAAGAAGGC
AACATATAAGAGAGTTCTTGAAGTGAGTGATAGTTGAATTCTCCAGTCATTTCTGGCAAAAGTT
GATTCTTACTTTGCTAGGGAGTTCATAAAGAAGTAATCAAGCAACTTAACAACATACTAGAACA
AACATAATTAAGTTGAATAGGTGATAACAATATGCCAAAATGAACCTTACCTTCTCCACACCAT
ATAAATAGGTAGGTTCAAATGCTTTGCTTCGTCTCTCAAACCACTGTACTGTAATAAACAACAT
ACCACGAGAAGTTAGAGAAAATGAGACCCTTGTGAGTTGACAGCAAAGGGCAAAGATAAGAAAA
GTCATATAGGCACCACTAGATCATATGACCAGTTTACTGCCAGACAACATACCTATTGTTGAAA
CAAGATGATCCACGCTTGGTAATTGAATACCCTTGATGGTATGGAGGAAGTCATTCCAGTTTGA
TCTGAA
						
					

			
		

Sequences
Splice junction sequence	TACTGCCAGACAACATACCTATTGTTGAAACAAGATGATCCACGCTTGGTAATTGAATACCCTT GATGGTATGGAGGAAGTCATTCCAGTTTGATCTGAActccaaatcttgttggacctgctggtgg ttcatgtccgtaactgagatcataaagctcctttgtttgaaagttgtataaatagcctgcatat caaaccaa
Assembled circRNA sequence	Yes The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	Transcript length: 403 Transcript exons: 25853277-25853360,25853472-25853551,25854958-25855052,25 855247-25855308,25855441-25855522 CTCCAAATCTTGTTGGACCTGCTGGTGGTTCATGTCCGTAACTGAGATCATAAAGCTCCTTTGT TTGAAAGTTGTATAAATAGCCATGACCAGGGGAGTTCACTAAGCTGTTTGTAAGTATAGTGTCA TAGCCAACAATGCTGTTTATTAAAAGCTGTTGCCACCTATTTCCAAAGCAAGGATTTCGAGCAG AAATTGTGATATTTATAGTCCGAACACCATGACGAACTTTGGCCCCTTCTGAAAGCAAGAAATA TCCCTTCTCCACACCATATAAATAGGTAGGTTCAAATGCTTTGCTTCGTCTCTCAAACCACTGT ACTATTGTTGAAACAAGATGATCCACGCTTGGTAATTGAATACCCTTGATGGTATGGAGGAAGT CATTCCAGTTTGATCTGAA
Genomic sequence	CTCCAAATCTTGTTGGACCTGCTGGTGGTTCATGTCCGTAACTGAGATCATAAAGCTCCTTTGT TTGAAAGTTGTATAAATAGCCTGCATATCAAACCAAAGTACAAAATATGTGAGCTAACTAAGTT TGCGACAGTTGCATAGAACATCCTGATAGTTAAAAGTACCAAAAGCAAAATCACATCAGAAGCA TACCATGACCAGGGGAGTTCACTAAGCTGTTTGTAAGTATAGTGTCATAGCCAACAATGCTGTT TATTAAAAGCTGTTGCCACCTGAAAGGTTAAAAAAGAGAGATTGGATAGCATAAGAACATAGCG GTGGGCATGAAAGAACAGTGGAGCATTATCACATTCTGCAGATACCCACTACAGAAGCAAAATG AAAGAAGACAGAACGAATGCAAAATCTTGTTTAAGTTCTCAATATAAATGACAGATTTTTAAGT AGCAATTAGATATTCCATATTTGTAACGCTAGAATTTTTATGCAGCTCTTTGAAACTCAGTAAA TGTTCCAACTATTTGGGTACAAGAGCAATATAAAACAAAGATCAATAAACAAAATGAGAAAATT CCTTGCATGCCATCCAAAGTCCTTACACGCCATCCAAAGTTTATGAGTTTGTTTCCTAATATGC CATGTCGAAATTATTGTTCCATTCACCAATGCCTAAACTTCTCTTGCCTTTTTTTTTTTTGCCA TTCTCATCATCCTAATGTTAGCAAACTGTTACATGGGCGGTAAGATGACCATTGGGCCCTCCAT ATCTTCTTCAACTTGTCTCCTTCCTCTTCCATTCTTTCACGCCACTTCACTGCGCCTACCTCCC ATGCAACTGCTCCCCCGGTTGCACATGCTTTCTCGATCTCATTGCCCCACAGCACACAACCAGG CATGGAAGGCGAGGACAGCACCACCATACCATCTGTCATGGCATCACAGCAGATGCAAGCATGT GTGGTATGCAGCAATCTGAATCCATTTTTTTTCTTCATGGGCACGGAAATGAACCCCAGTCTGC AGCAGGCGTACATACGGTGCCCGTGCTCCTCCTGGCAACCCCCCTCCCCCCCCCCCAACAAACT CTCTCTCTCTCTCTCCTCTCTTTAGACATAACAAAACAAAGCAAGCACTGGTATCTAGCCATAC CACACATAGAATGGCCTTGCTAAGCTGCCAGTTCAACAGAGGTGGGAAGTGAGCTGCCAATCCA CCATGCGGTTCACGCCATCATAACCTAGCCTCACTAGGTGAAGGGAGCAGTGATGTTGAGGCCC CAGCTTTCGCATCCAATTTGGGAGGAACTCTCTGAATCTATGCGCAAAGAGTAATTTCACCATT ATCACAAGAAAATGATAATGTTCCTAGCTGTGATTGTTGCTAGCTAACGGAAGAGCGACGTGGA TGGCAAAAGAGGGCAAAAAAATTTGGTTCGATGGCATATGGTGGAATGACAGCTTCCAATGCAT TTAAAGGAACTCATGAACTTTGAATGGCATCAAACAAGTAGACTTGCCAGAGCAATGAATTACA CAAACATGAACTTTTGGGCAGAATCAGGACATAAAAGTTAGAATCTAATCTAAGTAGCATGAAG TAGAAAGATGTCAAGTGGAAACTTTTGGAGACACATCTAGTGTGATATGCCCATTATGAGGAGC AAGTACTCGATAATGACCTATTTCCAAAGCAAGGATTTCGAGCAGAAATTGTGATATTTATAGT CCGAACACCATGACGAACTTTGGCCCCTTCTGAAAGCAAGAAATATCCCTGCAGGAAAGAAGGC AACATATAAGAGAGTTCTTGAAGTGAGTGATAGTTGAATTCTCCAGTCATTTCTGGCAAAAGTT GATTCTTACTTTGCTAGGGAGTTCATAAAGAAGTAATCAAGCAACTTAACAACATACTAGAACA AACATAATTAAGTTGAATAGGTGATAACAATATGCCAAAATGAACCTTACCTTCTCCACACCAT ATAAATAGGTAGGTTCAAATGCTTTGCTTCGTCTCTCAAACCACTGTACTGTAATAAACAACAT ACCACGAGAAGTTAGAGAAAATGAGACCCTTGTGAGTTGACAGCAAAGGGCAAAGATAAGAAAA GTCATATAGGCACCACTAGATCATATGACCAGTTTACTGCCAGACAACATACCTATTGTTGAAA CAAGATGATCCACGCTTGGTAATTGAATACCCTTGATGGTATGGAGGAAGTCATTCCAGTTTGA TCTGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.208079256

Conservation Information
Conserved circRNAs	NA
PMCS	0.208079256

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25855489-25853352(+)
25853476-25855505(-)
						
						Potential amino acid sequence
						
							MVWRKSFQFDLNSKSCWTCWWFMSVTEIIKLLCLKVV*(+)
MAIYTTFKQRSFMISVTDMNHQQVQQDLEFRSNWNDFLHTIKGIQLPSVDHLVSTIVQWFERRS
KAFEPTYLYGVEKGYFLLSEGAKVRHGVRTINITISARNPCFGNRWQQLLINSIVGYDTILTNS
LVNSPGHGYLYNFQTKELYDLSYGHEPPAGPTRFGVQIKLE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25855489-25853352(+) 25853476-25855505(-)
Potential amino acid sequence	MVWRKSFQFDLNSKSCWTCWWFMSVTEIIKLLCLKVV(+) MAIYTTFKQRSFMISVTDMNHQQVQQDLEFRSNWNDFLHTIKGIQLPSVDHLVSTIVQWFERRS KAFEPTYLYGVEKGYFLLSEGAKVRHGVRTINITISARNPCFGNRWQQLLINSIVGYDTILTNS LVNSPGHGYLYNFQTKELYDLSYGHEPPAGPTRFGVQIKLE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0659900_circ_g.2

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